CIDANE: comprehensive isoform discovery and abundance estimation
نویسندگان
چکیده
منابع مشابه
iReckon: simultaneous isoform discovery and abundance estimation from RNA-seq data.
High-throughput RNA sequencing (RNA-seq) promises to revolutionize our understanding of genes and their role in human disease by characterizing the RNA content of tissues and cells. The realization of this promise, however, is conditional on the development of effective computational methods for the identification and quantification of transcripts from incomplete and noisy data. In this article...
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Since the inception of next-generation mRNA sequencing (RNA-Seq) technology, various attempts have been made to utilize RNA-Seq data in assembling full-length mRNA isoforms de novo and estimating abundance of isoforms. However, for genes with more than a few exons, the problem tends to be challenging and often involves identifiability issues in statistical modeling. We have developed a statisti...
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Ras proteins are important signalling hubs situated near the top of networks controlling cell proliferation, differentiation and survival. Three almost identical isoforms, HRAS, KRAS and NRAS, are ubiquitously expressed yet have differing biological and oncogenic properties. In order to help understand the relative biological contributions of each isoform we have optimised a quantitative proteo...
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UNLABELLED : Ribosome profiling is a recently developed high-throughput sequencing technique that captures approximately 30 bp long ribosome-protected mRNA fragments during translation. Because of alternative splicing and repetitive sequences, a ribosome-protected read may map to many places in the transcriptome, leading to discarded or arbitrary mappings when standard approaches are used. We p...
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James D. Nichols, USGS Patuxent Wildlife Research Center, 11510 American Holly Drive, Laurel, MD 20708–4017, U.S.A. E–mail: [email protected] Darryl I. MacKenzie, Proteus Research & Consulting Ltd., PO Box 5193, Dunedin, New Zealand. E– mail: [email protected] Nichols, J. D. & MacKenzie, D. I., 2004. Abundance estimation and Conservation Biology. Animal Biodiversity and Conservation, 27.1...
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ژورنال
عنوان ژورنال: Genome Biology
سال: 2016
ISSN: 1474-760X
DOI: 10.1186/s13059-015-0865-0